Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012923.1 Corchorus olitorius cultivar O-4 contig12956, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 3419
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.32


Found at i:167 original size:19 final size:18

Alignment explanation


    Indices: 134--169  Score: 54
    Period size: 19  Copynumber: 1.9  Consensus size: 18

        124 TGGAAATAAT

                              
        134 TCTTCAATGGTCTTCAAA
          1 TCTTCAATGGTCTTCAAA

                     *        
        152 TCTTCAAATTGTCTTCAA
          1 TCTTC-AATGGTCTTCAA

        170 TAAGTCTTCA


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  18    5  0.31
  19   11  0.69

ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42


Consensus pattern (18 bp):   
TCTTCAATGGTCTTCAAA

Found at i:1722 original size:30 final size:29

Alignment explanation


    Indices: 1683--1739  Score: 89
    Period size: 30  Copynumber: 1.9  Consensus size: 29

       1673 GTTTATTAAT

                                           
       1683 GAAACTTGAAAATTAAAGACATAAGATAAAA
          1 GAAACTTGAAAATTAAAG-CATAA-ATAAAA

                                       
       1714 GAAA-TTGAAAATTAAAGCATAAATAA
          1 GAAACTTGAAAATTAAAGCATAAATAA

       1740 CTAATCCTAA


Statistics
Matches: 26,  Mismatches: 0, Indels: 3
        0.90            0.00        0.10

Matches are distributed among these distances:
  28    4  0.15
  29    5  0.19
  30   13  0.50
  31    4  0.15

ACGTcount: A:0.61, C:0.05, G:0.12, T:0.21


Consensus pattern (29 bp):   
GAAACTTGAAAATTAAAGCATAAATAAAA
Done.